Aside

Hédia Tnani

Contact Info

SKILLS

R tidyverse ggplot

Python Shell

Git Github

Docker aws

LANGUAGES

Arabic, French: Native

English: Proficient

Spanish: Proficient

Disclaimer

Last updated on 2021-04-28

Main

Hédia Tnani

Education

Master in TICV

National School of Engineering (ENIT)

Tunis, Tunisia

2019 - 2020

  • Graduate Program in System Biology, Machine Learning, Image Processing and Deep Learning
  • Skills: Python programming, Image processing using OpenCV, Machine Learning algorithms, Time series

Master in Big Data

Centrale University (UC)

Tunis, Tunisia

2018 - 2019

  • Graduate Program in Big Data and Machine Learning
  • Skills: Big data tools (Hadoop, Spark, Storm, Flink, Flume, Sqoop), NoSQL databases (MongoDB, Cassandra, CouchDB), Object oriented programming

PhD in Biotechnology

Centre for Research in Agricultural Genomics (CRAG)

Barcelona, Spain

2007 - 2012

  • Research project: The structure and function of maize scutellum during early stages of germination
  • Scholarship: Becas Predoctoral I3P
  • Advisor: Carlos Vicient
  • The structure and function of maize scutellum during early stages of germination
  • Construction of cDNA library for macroarrays and gene expression analysis of the microarrays
  • Transgenic plant characterization and mutant plant analysis
  • Confocal microscopy and subcellular localization
  • Quantitative subproteomic analysis of germinating related changes in the scutellum oil bodies of Zea mays
  • Molecular chracterization of ZmPTR1, a maize peptide transporter expressed in the epithelial cells of the scutellum during germination
  • Bioinformatics tools: primer design, DNA/RNA sequence analysis, sequence alignment (GenBank,NCBI, TIGR Maize Database, Maize GDB, MSU Rice Genome Annotation Project)
  • Agrobacterium-mediated transformation of Arabidopsis thaliana using the floral dip method

Master in Plant Breeding

CIHEAM Zaragoza, Mediterranean Agronomic Institute of Zaragoza

Zaragoza, Spain

2004 - 2007

  • Graduate Program in Plant breeding
  • Dissertation:The structure and function of maize scutellum during early stages of germination
  • Advisor: Carlos Vicient


Research Projects

PostDoctoral Fellow

Pasteur Institute of Tunis (IPT). Laboratory of Bioinformatics, Biomathematics and Biostatistics (BIMS)

Tunis, Tunisia

2018 - Currently

  • Drug discovery: Study of gene expression during infection to understand the Host-Pathogen interaction of L.major and Network Propagation analysis
  • Identification of novel drug targets in Leishmania major using in-silico metabolic coupling
  • Part of the H3ABioNet Workflows, Machine Learning, RefGraph, Gene Association WPs
  • Development of Shell, R and Python pipelines for bioinformatics data analysis
  • Cloud computing using AWS
  • Nextflow pipeline for Variant Calling analysis and RNA-seq
  • Continuous Integration of the bioinformatic workflows

PostDoctoral Fellow

International Rice Research Institute (IRRI)

Los Baños, Philippines

2013 - 2017

  • Project manager of a BMZ project on developing flood tolerant rice varieties
  • Fine mapping and candidate gene analysis of a QTL for anaerobic conditions during germination
  • Identification of new QTLs for tolerance to anaerobic conditions using Genome Wide Association Studies (GWAS) and 3K Rice Genomes Project
  • RNA-seq data analysis of anaerobic germination (AG) tolerant varieties
  • SNP Data Analysis and QTL mapping: Plink, Haploview,TASSEL, FLAPJACK, GAPIT,GenomeBrowse, IGV

PostDoctoral Fellow

National Centre of Scientific Research (CNRS)

Rouen, France

2012 - 2013

  • Project manager of the research aspect of an Interreg project between France (CNRS / University of Rouen) and England (University of Portsmouth)
  • Development of bio-based cleaning wipes and filters using antiviral effects of polyphenols
  • Protein analysis (plant protein extraction, viral protein extraction, SDS page analysis, 2D electrophoresis analysis)

Projects

R-Ladies Tunis Co-founder

N/A

Tunis, Tunisia

2020 - Currently







Teaching Experience

Teaching Assistant (TA)

H3ABioNet

Online

2020

Teaching Assistant (TA)

Higher School of Statistics and Information Analysis (ESSAI)

Tunis, Tunisia

2020

  • Course: Introduction to Bioinformatics using R and Python
  • The students got introduced to the analysis of genomic data. They played with SARS-COV2 sequences and made Multiple Sequence Alignement (MSA). At the end of this course the students developped a Shinyapp and published their report in rpubs.

Grants

Predoctoral I3P Scholarship

N/A

Barcelona, Spain

2007 - 2012

  • Superior Council of Scientific Research Predoctoral I3P fellowship (CSIC)

CIHEAM Scholarship

N/A

Zaragoza, Spain

2004 - 2007

  • International Center for Advanced Mediterranean Agronomic Studies fellowship (CIHEAM)

Publications in Journals

Enriched-GWAS and Transcriptome Analysis to Refine and Characterize a Major QTL for Anaerobic Germination Tolerance in Rice

International Journal of Molecular Sciences

N/A

2021

  • Tnani H, Chebotarov D, Thapa R, Ignacio JCI, Israel WK, Quilloy FA, Dixit S, Septiningsih EM, Kretzschmar T

Antiviral effects of polyphenols:development of bio-based cleaning wipes and filters

N/A

Journal of Virological Methods 2015, 212: 1–7

2015

  • Catel-Ferreira M, Tnani H, Hellio C, Cosette P, Lebrun L

ZmPTR1, a maize peptide transporter expressed in the epithelial cells of the scutellum during germination

N/A

Plant Science 2013, 207: 140-147

2013

  • Tnani H, López I, García-Muniz N, Vicient CM

Expression profile of maize (Zea mays) scutellar epithelium during imbibition

N/A

Journal of Plant Physiology 2012, 169: 1430–1433

2012

  • Tnani H, García-Muniz N, Vicient CM, López I

Control of the scutellar epithelial cell elongation during germination in maize (Zea mays L.)

N/A

Seed Science and Technology 2011, 39: 253-258

2011

  • Tnani H, López I, Vicient CM

Protein composition analysis of oil bodies from maize embryos during germination

N/A

Journal of Plant Physiology 2011, 168: 510-513

2011

  • Tnani H, López I, Jouenne T, Vicient CM

Workshops taught

RNA-Seq Downstream analysis using R

International Rice Research Institute (IRRI)

Los Baños, Philippines

2019

  • Workshop on R for Genomic Data Analysis

Oral Communications

Differential quantitative proteomics analysis of the phage T4 under exposure to polyphenols using Label-free LC-MSMS

IRRI PBGB seminar

Los Baños, Philippines

2014

  • Tnani H, Cosette P, Jouenne T

Gene expression in the scutellum of germinating maize

ISSS Workshop on Molecular Aspects of Seed Dormancy and Germination

Salamanca, Spain

2007

  • Tnani H, López Ribera I, Vicient CM

Temporal and spatial variations of maize scutellum transcriptome during germination

IVth Workshop on Plant physiology. Catalan Society of Biology

Barcelona, Spain

2006

  • Tnani H, López Ribera I, Vicient CM

Poster Presentations

Fine mapping and candidate gene analysis of a QTL for anaerobic conditions during germination

4th International Rice Congress

Bangkok, Thailand

2014

  • Tnani H, Ignacio JC, Pelayo MA, Israel WK, Kretzschmar T, Septiningsih E

A new maize peptide transporter involved in the transport from the endosperm to the embryonic axis

Xth Congress Of Plant Molecular Biology

Valencia, Spain

2010

  • Tnani H., López Ribera I., Vicient Sánchez CM

Gene expression in the scutellum of wild-type and dwarf1 maize mutant during germination

20th International Conference on Plant Growth Substances

Tarragona, Spain

2010

  • Vicient Sánchez CM, Tnani H, López Ribera I

The transcriptome of maize scutellum

IXth Congress Of Plant Molecular Biology

Santiago de Compostela, Spain

2008

  • López I, Tnani H, Miquel M, Vicient CM

Expression profile of maize scutellum

VIIIth Congress of Plant Molecular Biology

Pamplona, Spain

2006

  • López I, Sánchez-Pons N, Miquel M, Bastida M, Tnani H, Puigdomènech P, Vicient CM

Meetup Presentations

R - Introduction to R (R-Ladies Tunis)

Meetup R-Ladies Tunis

Online

2020

  • Workshop in English

R - Data Structures in R

Meetup R-Ladies Tunis

Online

2020

  • Workshop in English

Short courses Attended

Introduction to robotics

University of Coimbra

Coimbra, Portugal

2019

Advanced R for Bioinformatics

Uppsala University

Visby, Sweden

2018

Bioinformatics and Genome analysis

Institut Pasteur de Tunis

Tunis, Tunisia

2017

References

Dr. Tobias Kretzschmar

Southern Cross Plant Science

Australia

N/A

Dr. Endang Septiningsih

Department of Soil and Crop Sciences, Texas A&M University

United States

N/A